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Sample GSM1165488 Query DataSets for GSM1165488
Status Public on Jun 18, 2013
Title STAV AB xenograft
Sample type genomic
 
Channel 1
Source name STAV AB xenograft
Organism Homo sapiens
Characteristics cell type: mesothelioma cells
Growth protocol One million cells in 0.2 ml Iscove’s modified Dulbecco’s medium were inoculated subcutaneously into 6-week old SCID mice
Extracted molecule genomic DNA
Extraction protocol Total genomic DNA was isolated using the GeneElute mammalian genomic DNA miniprep kit (Sigma-Aldrich, Germany)
Label Cy3
Label protocol 2 μg of test DNA and 2 μg of reference DNA were differentially labelled by random priming using Cy3-dCTP (PA53021, GE Healthcare, Piscataway, NJ) and Cy5-dCTP (PA55021, GE Healthcare)
 
Channel 2
Source name Pool of human peripheral blood DNA from 10 healthy female donors
Organism Homo sapiens
Characteristics reference: Pool of human peripheral blood DNA from 10 healthy female donors
Extracted molecule genomic DNA
Extraction protocol Total genomic DNA was isolated using the GeneElute mammalian genomic DNA miniprep kit (Sigma-Aldrich, Germany)
Label Cy5
Label protocol 2 μg of test DNA and 2 μg of reference DNA were differentially labelled by random priming using Cy3-dCTP (PA53021, GE Healthcare, Piscataway, NJ) and Cy5-dCTP (PA55021, GE Healthcare)
 
 
Hybridization protocol Labelled samles were mixed with 100 μg of Cot-1 DNA (Roche, Basel, Switzerland) and hybridized to the array.
Scan protocol Image acquisition was performed using the GenePix 4000B scanner (Axon Instruments Inc., Union City, CA).
Data processing The average and coefficient of variation of fluorescence ratios for each measurement point were calculated. Data points displaying a coefficient of variation greater than 5% between at least two of the replica spots were discarded from further analysis.
 
Submission date Jun 17, 2013
Last update date Jun 18, 2013
Contact name Gustav Nilsonne
E-mail(s) gustav.nilsonne@ki.se
Phone +46736798743
Organization name Karolinska Institutet
Street address Retzius väg 8 A2:3
City Stockholm
State/province None/Not Applicable
ZIP/Postal code SE-17177
Country Sweden
 
Platform ID GPL17299
Series (1)
GSE48019 Human STAV cells from AB and FCS sublines grown in cell culture or as xenografts

Data table header descriptions
ID_REF
VALUE Normalized log2 ratio (Cy5/Cy3) representing test/reference

Data table
ID_REF VALUE
1 1.022948399
2 1.085373081
3 1.103590055
4
5 1.034204054
6
7
8 1.015367253
9 0.965795946
10 0.72035945
11 0.85754608
12 1.205689193
13 1.027292124
14 0.921946305
15
16 1.622651574
17 1.429206424
18 1.119336366
19 1.630541397
20 1.443793338

Total number of rows: 174

Table truncated, full table size 2 Kbytes.




Supplementary file Size Download File type/resource
GSM1165488_STAV_AB_xenograft.gpr.gz 379.1 Kb (ftp)(http) GPR
Processed data included within Sample table

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